LXL04_021023 | RubberDandelionOmics

Gene overview

LXL04_021023

Reference: OH-1004 Chr: Chr04 Coordinates: 119275790-119277130 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1341 bp · LXL04_021023|LXL04_021023|OH1004|cDNA

ATGTTGGAAGATCGATCTTGTTTTGTATCAAGAAGTTACAGTCGCGAAAGGGACAATAGCCACAATACTTGGAGTTATATGAGCAATTACAGTATAGAAAGACTAGAATCCCAACAAGAAAAACGTCCATTAGAACACGATGAAAACGAAGAACTCGATCATGCCCGAAAAGTCTCGAAACAATCAAACAATTTACAAAACCTACAACTCGAATTAGGGTGCCTCGAGTTTTCTAATCATTCGAATAATCAAGATCAAGC...

CDS

Download CDS FASTA

1341 bp · LXL04_021023|LXL04_021023|OH1004|CDS

ATGTTGGAAGATCGATCTTGTTTTGTATCAAGAAGTTACAGTCGCGAAAGGGACAATAGCCACAATACTTGGAGTTATATGAGCAATTACAGTATAGAAAGACTAGAATCCCAACAAGAAAAACGTCCATTAGAACACGATGAAAACGAAGAACTCGATCATGCCCGAAAAGTCTCGAAACAATCAAACAATTTACAAAACCTACAACTCGAATTAGGGTGCCTCGAGTTTTCTAATCATTCGAATAATCAAGATCAAGC...

Protein

Download Protein FASTA

446 aa · LXL04_021023|LXL04_021023|OH1004|PROTEIN

MLEDRSCFVSRSYSRERDNSHNTWSYMSNYSIERLESQQEKRPLEHDENEELDHARKVSKQSNNLQNLQLELGCLEFSNHSNNQDQAGDSSSLINGLDRDNSLTCLMKCSRSNYGSIASLNRTFRDLVRSGELYRLRRKNGIIEHWVYFSCHLVEWESFDPITSRWMHLPTMTSNPCFQFSDKESLAVGTELLVLGKEVLDHVIYKYSLLTNSWSLGRNMNFPRCLFGSASLGEKAIVAGGCDPNGRIVNSAELYDSELG...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_021023`
TK1151 ID	TkA05G342930
OH-1004 ID	LXL04_021023
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_021023

Location Chr04:119275790-119277130 (+)

Description Similar to SKIP11: F-box/kelch-repeat protein SKIP11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g02870`	Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At1g26930`	F-box/kelch-repeat protein At1g26930.	No verified direct reference in this release
`At1g74510`	F-box/kelch-repeat protein At1g74510.	No verified direct reference in this release
`At5g60570`	F-box/kelch-repeat protein At5g60570.	No verified direct reference in this release
`At3g27150`	F-box/kelch-repeat protein At3g27150.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021023 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT1G26930

ath:AT1G74510

ath:AT2G02870

ath:AT3G27150

ath:AT5G60570

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.761

Rank 1 · LXL04_021023 · OH-1004

Cytoplasm0.225

Rank 2 · LXL04_021023 · OH-1004

Cell membrane0.059

Rank 3 · LXL04_021023 · OH-1004

Plastid0.036

Rank 4 · LXL04_021023 · OH-1004

Endoplasmic reticulum0.032

Rank 5 · LXL04_021023 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF24681.2Kelch_KLHDC2_KLHL20_DRC7160-324 aa

PF24981.2Beta-prop_ATRN-LZTR1196-317 aa

PF13964.13Beta-prop_Calicin200-321 aa

PF13415.13Beta-prop_FBX42203-295 aa

PF01344.32Kelch_1223-268 aa

PF25210.2Kelch_FKB95233-316 aa

PF01344.32Kelch_1271-318 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021023	`PF24681.2`	Kelch_KLHDC2_KLHL20_DRC7	160	324	3.1e-10	40.5
LXL04_021023	`PF24981.2`	Beta-prop_ATRN-LZTR1	196	317	1e-07	32.2
LXL04_021023	`PF13964.13`	Beta-prop_Calicin	200	321	4e-09	36.6
LXL04_021023	`PF13415.13`	Beta-prop_FBX42	203	295	4.3e-08	33.8
LXL04_021023	`PF01344.32`	Kelch_1	223	268	5e-30	103.4
LXL04_021023	`PF25210.2`	Kelch_FKB95	233	316	4.2e-16	60.1
LXL04_021023	`PF01344.32`	Kelch_1	271	318	5e-30	103.4

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8L736`	Arabidopsis thaliana	F-box/kelch-repeat protein SKIP11	67.655%	Swiss-Prot	strong database homology
`Q84M94`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g26930	56.416%	Swiss-Prot	strong database homology
`Q9CA63`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g74510	62.360%	Swiss-Prot	strong database homology
`Q9FKJ0`	Arabidopsis thaliana	F-box/kelch-repeat protein At5g60570	47.268%	Swiss-Prot	moderate database homology
`Q9LI89`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g27150	36.827%	Swiss-Prot	moderate database homology

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